mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| MC JC | 257,908 | Δ776 bp | 100% | insB9–[crl] | insB9, insA9, [crl] | |
| JC JC | 1,293,015 | IS1 (–) +8 bp | 8.6% | intergenic (‑93/‑505) | hns ← / → tdk | DNA‑binding transcriptional dual regulator H‑NS/thymidine/deoxyuridine kinase |
| MC JC | 1,397,381 | Δ13,756 bp | 100% | [ynaJ]–[ttcA] | 16 genes [ynaJ], uspE, fnr, ogt, abgT, abgB, abgA, abgR, mcaS, smrA, dgcM, zntB, fnrS, ynaL, dbpA, [ttcA] |
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| MC JC | 1,978,503 | Δ776 bp | 100% | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 2,173,361 | Δ2 bp | 100% | pseudogene (917‑918/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,867,169 | A→T | 34.6% | I128N (ATC→AAC) | rpoS ← | RNA polymerase, sigma S (sigma 38) factor |
| RA | 3,560,455:1 | +G | 100% | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| JC JC | 3,899,395 | IS1 (–) +9 bp | 100% | intergenic (‑2/+5) | yieK ← / ← yieL | putative glucosamine‑6‑phosphate deaminase YieK/putative hydrolase YieL |
| RA | 4,296,060 | C→T | 27.9% | intergenic (+266/+376) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,296,380:1 | +CG | 100% | intergenic (+586/+56) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| JC | 4,393,620 | Δ94 bp | 5.4% | coding (355‑448/1140 nt) | queG ← | epoxyqueuosine reductase |
| JC JC | 4,542,015 | IS1 (+) +9 bp | 13.9% | intergenic (+456/‑14) | fimB → / → fimE | regulator for fimA/regulator for fimA |
| JC JC | 4,542,073 | IS1 (+) +9 bp | 6.1% | coding (37‑45/597 nt) | fimE → | regulator for fimA |
| JC JC | 4,542,428 | IS1 (–) +9 bp | 10.6% | coding (392‑400/597 nt) | fimE → | regulator for fimA |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3423696–3424234 | 3424597–3424238 | 5–902 | 57 [56] | [55] 58 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 807339 | 6 (0.060) | 79 (0.850) | 55/176 | NT | 94.6% | intergenic (‑58/+94) | ybhC/ybhB | outer membrane lipoprotein YhbC/putative kinase inhibitor |
| ? | NC_000913 | 4171877 = | 3 (0.030) | intergenic (+121/‑180) | rrfB/murB | 5S ribosomal RNA/UDP‑N‑acetylenolpyruvoylglucosamine reductase | |||||
| * | ? | NC_000913 | 1207790 = | 42 (0.450) | 45 (0.590) | 37/144 | NT | 52.9% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 46 (0.600) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 48 (0.510) | 30 (0.390) | 26/144 | NT | 41.3% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 46 (0.600) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 100 (1.120) | 77/168 | NT | 100% | intergenic (+253/‑33) | ychE/insH21 | putative inner membrane protein/IS5 transposase and trans‑activator |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+151/‑484) | insH21/oppA | IS5 transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 9 (0.100) | 9/176 | NT | 7.8% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 4542175 | 107 (1.150) | coding (139/597 nt) | fimE | regulator for fimA | |||||
| * | ? | NC_000913 | 4542682 = | 67 (0.720) | 14 (0.150) | 14/174 | NT | 17.8% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542995 = | 63 (0.680) | intergenic (+362/‑120) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 4542682 = | 67 (0.720) | 33 (0.390) | 32/158 | NT | 36.1% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 57 (0.680) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 4542690 | 69 (0.740) | 66 (0.790) | 46/158 | NT | 52.6% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 57 (0.680) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||